TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0217c/lipW:

update plot	correlation	link to info on gene
Rv0342/iniA	(cc=0.5155)	info on Rv0342/iniA
Rv3156/nuoL	(cc=0.5048)	info on Rv3156/nuoL
Rv1726/-	(cc=0.5017)	info on Rv1726/-
Rv1947/-	(cc=0.5007)	info on Rv1947/-
Rv3504/fadE26	(cc=0.487)	info on Rv3504/fadE26
Rv2679/echA15	(cc=0.4771)	info on Rv2679/echA15
Rv3191c/-	(cc=0.47)	info on Rv3191c/-
Rv0477/-	(cc=0.4668)	info on Rv0477/-
Rv0160c/PE4	(cc=0.4658)	info on Rv0160c/PE4
Rv3406/-	(cc=0.4625)	info on Rv3406/-

Correlation of Rv0217c/lipW with Rv0342/iniA

Normalized LFCs for Rv0217c/lipW:
(description and provenance of datasets)

	Rv0217c/lipW	Rv0342/iniA
Fe_supp_jason_reseq	-1.163	-0.583
low_pH_jason_reseq	-1.205	-0.781
NO_jason_reseq	-0.711	0.795
B6_jason_reseq	-0.274	0.252
MHCII_jason_reseq	-0.171	0.5
Isoniazid02	-1.855	-2.219
Rifampicin4	0.319	0.33
Ethambutol3	-1.417	-2.382
Meropenem3	-1.083	-1.242
Vancomycin16	-0.684	-0.7
Rv2680_day32	0.092	-0.18
H37Rv_KO_MarP	0.368	0.368
hypoxia_3wks	0.0	-0.112
hypoxia_6wks	-0.952	-0.535
glycerol	0.102	0.532
cholesterol	0.212	0.446
AJ	0.165	0.765
Bibs02	1.186	0.009
Bibs02c	0.086	-0.656
BL6	-0.259	-0.238
BL6a	0.478	-0.331
BXD01	0.237	-0.119
BXD010	-0.421	-0.076
BXD011	0.975	0.106
BXD03	0.258	0.207
BXD04	-0.461	0.058
BXD05	0.932	0.414
BXD06	0.195	0.387
BXD07	-0.202	-0.097
BXD08	0.17	0.05
BXD09	-0.03	-0.062
CAST	-0.39	0.322
CCcont	-0.199	-0.276
DS01	0.849	-0.477
DS02	0.132	0.221
DS04	0.638	-0.646
DS0c	-0.165	0.489
GP01	0.418	0.527
GP02	-0.205	0.28
GP0c	0.672	0.068
NOD	-0.145	0.042
NZO	0.941	0.549
PWK	0.323	0.517
H37Rv_KO_CtpC	-0.421	0.207
H37Rv_KO_CtpD	0.436	-0.05
H37Rv_KO_Rv1272	-0.777	0.588
H37Rv_KO_SugABC	0.206	0.512
H37Rv_KO_MbtN	0.864	0.24
Trans05	0.41	0.793
macrophage_unactivated	-0.319	-0.429
IL1	0.0	-0.35
Rapamycin	0.0	0.147
Tcell	-0.137	-0.081
GMCSF	0.071	-0.312
IFNab	-0.085	0.239
IFNg	-0.601	-0.155
IFNg_GMCSF1	0.798	0.176
Rv1432_day32	-0.222	0.186
Rv1565c_day32	-0.041	0.39
secA2_input	0.121	0.564
delta_Rv3594	0.419	-0.509
delta_Rv3717	0.127	-0.352
delta_Rv3811	-0.269	-0.495
delta_Rv0954	0.0	-0.351
PonA1	0.03	-0.163
EccD1_KO	-0.533	0.023
EspI_KO	-0.16	-0.522
PE35_KO	-0.543	-0.292
PPE68_KO	-0.442	-0.659
glycerol2	0.135	0.423
lignocerate	-0.465	0.66
oleate	0.818	0.461
phosphatidylcholine	-0.108	0.391
acetate	-0.555	0.632
glucAc	-0.774	0.381
Rv0950ko	-0.256	0.286
Rv1096ko	0.688	0.531
Rv3684ko	-0.138	0.311
delta_otsA_trehalose	1.574	1.165